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Volumn 84, Issue 3, 2000, Pages 227-237

Interaction of alkaline-earth metal ions with calf thymus DNA. Volume and compressibility effects in diluted aqueous solutions

Author keywords

Alkaline earth metal ions; Binding to DNA; Compressibility; Hydration effects; Ultrasound; Volume

Indexed keywords

ALKALINE EARTH METAL; DNA; WATER;

EID: 0034657752     PISSN: 03014622     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0301-4622(00)00125-3     Document Type: Article
Times cited : (21)

References (61)
  • 1
    • 0017895903 scopus 로고
    • The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides
    • Manning G.S. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides. Q. Rev. Biophys. 11:1978;179-246.
    • (1978) Q. Rev. Biophys. , vol.11 , pp. 179-246
    • Manning, G.S.1
  • 3
    • 0026808625 scopus 로고
    • Thermodynamics of ligand-nucleic acid interactions
    • Lohman T.M., Mascotti D.P. Thermodynamics of ligand-nucleic acid interactions. Methodes Enzymol. 212:1992;400-424.
    • (1992) Methodes Enzymol. , vol.212 , pp. 400-424
    • Lohman, T.M.1    Mascotti, D.P.2
  • 7
    • 0026616638 scopus 로고
    • 25Mg spin relaxation in Mg-DNA solutions: Temperature variation and chemical exchange effects
    • 25Mg spin relaxation in Mg-DNA solutions: temperature variation and chemical exchange effects. Biopolymers. 32:1992;1339-1350.
    • (1992) Biopolymers , vol.32 , pp. 1339-1350
    • Berggren, E.1    Nordenskiöld, L.2    Braunlin, W.H.3
  • 9
    • 0025816853 scopus 로고
    • The structure of B-helical C-G-A-T-C-G-A-T-C-G and comparison with C-C-A-A-C-G-T-T-G-G. The effect of base pair reversals
    • Grzeskowiak K., Yanaga K., Prive G.G., Dickerson R.E. The structure of B-helical C-G-A-T-C-G-A-T-C-G and comparison with C-C-A-A-C-G-T-T-G-G. The effect of base pair reversals. J. Biol. Chem. 266:1991;8861-8883.
    • (1991) J. Biol. Chem. , vol.266 , pp. 8861-8883
    • Grzeskowiak, K.1    Yanaga, K.2    Prive, G.G.3    Dickerson, R.E.4
  • 10
    • 0032499635 scopus 로고    scopus 로고
    • The B-DNA dodecamer at high resolution reveals a spine of water on sodium
    • Shui X., McFail-Isom L., Hu G.G., Williams L.D. The B-DNA dodecamer at high resolution reveals a spine of water on sodium. Biochemistry. 37:1998;8341-8355.
    • (1998) Biochemistry , vol.37 , pp. 8341-8355
    • Shui, X.1    McFail-Isom, L.2    Hu, G.G.3    Williams, L.D.4
  • 11
    • 0032497951 scopus 로고    scopus 로고
    • Divalent cations stabilize unstacked conformations of DNA and RNA by interacting with base Π systems
    • McFail-Isom L., Shui X., Williams L.D. Divalent cations stabilize unstacked conformations of DNA and RNA by interacting with base Π systems. Biochemistry. 37:1998;17105-17111.
    • (1998) Biochemistry , vol.37 , pp. 17105-17111
    • McFail-Isom, L.1    Shui, X.2    Williams, L.D.3
  • 12
    • 0023708040 scopus 로고
    • Water: An integral part of nucleic acid structure
    • Westhof E. Water: an integral part of nucleic acid structure. Ann. Rev. Phys. Chem. 17:1988;125-144.
    • (1988) Ann. Rev. Phys. Chem. , vol.17 , pp. 125-144
    • Westhof, E.1
  • 15
    • 0028955215 scopus 로고
    • Hydration of nucleic acid fragments: Comparison of theory and experiment for high-resolution crystal structures of RNA, DNA, and DNA-drug complexes
    • Hummer G., Garcia A.E., Soumpasis D.M. Hydration of nucleic acid fragments: comparison of theory and experiment for high-resolution crystal structures of RNA, DNA, and DNA-drug complexes. Biophys. J. 68:1995;1639-1652.
    • (1995) Biophys. J. , vol.68 , pp. 1639-1652
    • Hummer, G.1    Garcia, A.E.2    Soumpasis, D.M.3
  • 16
    • 0019843568 scopus 로고
    • Structure of a B-DNA dodecamer III. Geometry of hydration
    • Drew H.R., Dickerson R.E. Structure of a B-DNA dodecamer III. Geometry of hydration. J. Mol. Biol. 151:1981;535-556.
    • (1981) J. Mol. Biol. , vol.151 , pp. 535-556
    • Drew, H.R.1    Dickerson, R.E.2
  • 17
    • 0020692923 scopus 로고
    • Ordered water structure around a B-DNA dodecamer. A quantitative study
    • Kopka M.L., Fratini A.V., Drew H.R., Dickerson R.E. Ordered water structure around a B-DNA dodecamer. A quantitative study. J. Mol. Biol. 163:1983;129-146.
    • (1983) J. Mol. Biol. , vol.163 , pp. 129-146
    • Kopka, M.L.1    Fratini, A.V.2    Drew, H.R.3    Dickerson, R.E.4
  • 18
    • 0023164663 scopus 로고
    • Poly(dA).poly(dT) is a B-type double helix with a distinctively narrow minor groove
    • Alexeev D.G., Lipanov A.A., Skuratovskii I.Y. Poly(dA).poly(dT) is a B-type double helix with a distinctively narrow minor groove. Nature. 325:1987;821-823.
    • (1987) Nature , vol.325 , pp. 821-823
    • Alexeev, D.G.1    Lipanov, A.A.2    Skuratovskii, I.Y.3
  • 19
    • 0000235752 scopus 로고
    • NMR evidence for DNA bound water in solution
    • Kubinek M.G., Wemmer D.E. NMR evidence for DNA bound water in solution. J. Am. Chem. Soc. 114:1992;8739-8740.
    • (1992) J. Am. Chem. Soc. , vol.114 , pp. 8739-8740
    • Kubinek, M.G.1    Wemmer, D.E.2
  • 21
    • 0021227193 scopus 로고
    • AT base pairs are less stable than GC base pairs in Z-DNA: The crystal structure of d(m(5)CGTAm(5)CG)
    • Wang A.H.-J., Hakoshima T., van der Marel G., van Boom J.H., Rich A. AT base pairs are less stable than GC base pairs in Z-DNA: the crystal structure of d(m(5)CGTAm(5)CG). Cell. 37:1984;321-331.
    • (1984) Cell , vol.37 , pp. 321-331
    • Wang, A.H.-J.1    Hakoshima, T.2    Van Der Marel, G.3    Van Boom, J.H.4    Rich, A.5
  • 22
    • 0023053306 scopus 로고
    • Solvation of the left-handed hexamer d(5BrC-G-5BrC-G-5BrC-G) in crystals grown at two temperatures
    • Chevrier B., Dock A.C., Hartmann B. et al. Solvation of the left-handed hexamer d(5BrC-G-5BrC-G-5BrC-G) in crystals grown at two temperatures. J. Mol. Biol. 188:1986;707-719.
    • (1986) J. Mol. Biol. , vol.188 , pp. 707-719
    • Chevrier, B.1    Dock, A.C.2    Hartmann, B.3
  • 23
    • 0023029727 scopus 로고
    • DNA conformation is determined by economics in the hydration of phosphate groups
    • Saenger W., Hunter W.N., Kennard O. DNA conformation is determined by economics in the hydration of phosphate groups. Nature. 324:1986;385-388.
    • (1986) Nature , vol.324 , pp. 385-388
    • Saenger, W.1    Hunter, W.N.2    Kennard, O.3
  • 24
    • 0024370350 scopus 로고
    • Measurements of anomalously high hydration of (dA)n.(dT)n double helices in dilute solution
    • Buckin V.A., Kankiya B.I., Bulichov N.V. et al. Measurements of anomalously high hydration of (dA)n.(dT)n double helices in dilute solution. Nature. 340:1989;321-322.
    • (1989) Nature , vol.340 , pp. 321-322
    • Buckin, V.A.1    Kankiya, B.I.2    Bulichov, N.V.3
  • 25
    • 0024384598 scopus 로고
    • Acoustical investigation of poly(dA).poly(dT), poly[d(A-T)].poly[d(A-T)], poly(A).poly(U) and DNA hydration in dilute aqueous solutions
    • Buckin V.A., Kankiya B.I., Sarvazyan A.P., Uedaira H. Acoustical investigation of poly(dA).poly(dT), poly[d(A-T)].poly[d(A-T)], poly(A).poly(U) and DNA hydration in dilute aqueous solutions. Nucleic Acids Res. 17:1989;4189-4203.
    • (1989) Nucleic Acids Res. , vol.17 , pp. 4189-4203
    • Buckin, V.A.1    Kankiya, B.I.2    Sarvazyan, A.P.3    Uedaira, H.4
  • 27
    • 0025195658 scopus 로고
    • +-induced B-Z transition of poly[d(G-C)] is positive
    • +-induced B-Z transition of poly[d(G-C)] is positive. Biopolymers. 29:1990;1069-1076.
    • (1990) Biopolymers , vol.29 , pp. 1069-1076
    • MacGregor Jr, R.B.1    Chen, M.Y.2
  • 28
    • 0027395923 scopus 로고
    • Volume changes correlate with entropies and enthalpies in the formation of nucleic acid homoduplexes: Different hydration of A and B conformations
    • Rentzeperis D., Kupke D.W., Marky L.A. Volume changes correlate with entropies and enthalpies in the formation of nucleic acid homoduplexes: different hydration of A and B conformations. Biopolymers. 33:1993;117-125.
    • (1993) Biopolymers , vol.33 , pp. 117-125
    • Rentzeperis, D.1    Kupke, D.W.2    Marky, L.A.3
  • 31
    • 0025855018 scopus 로고
    • Ultrasonic velocimetry of biological compounds
    • Sarvazyan A.P. Ultrasonic velocimetry of biological compounds. Ann. Rev. Biophys. Biophys. Chem. 20:1991;321-342.
    • (1991) Ann. Rev. Biophys. Biophys. Chem. , vol.20 , pp. 321-342
    • Sarvazyan, A.P.1
  • 32
    • 0027993455 scopus 로고
    • Hydration and partial compressibility of biological compounds
    • Chalikian T.V., Sarvazyan A.P., Breslauer K.J. Hydration and partial compressibility of biological compounds. Biophys. Chem. 51:1994;89-109.
    • (1994) Biophys. Chem. , vol.51 , pp. 89-109
    • Chalikian, T.V.1    Sarvazyan, A.P.2    Breslauer, K.J.3
  • 33
    • 0029763453 scopus 로고    scopus 로고
    • Hydration effects accompanying the substitution of counterions in the ionic atmosphere of poly(rA).poly(rU) and poly(rA).2poly(rU) helices
    • Buckin V.A., Tran H., Morozov V., Marky L.A. Hydration effects accompanying the substitution of counterions in the ionic atmosphere of poly(rA).poly(rU) and poly(rA).2poly(rU) helices. J. Am. Chem. Soc. 118:1996;7033-7039.
    • (1996) J. Am. Chem. Soc. , vol.118 , pp. 7033-7039
    • Buckin, V.A.1    Tran, H.2    Morozov, V.3    Marky, L.A.4
  • 35
    • 0031477415 scopus 로고    scopus 로고
    • Volume and compressibility effects in the formation of metal-EDTA complexes
    • Kankia B.I., Funck T., Uedaira H., Buckin V.A. Volume and compressibility effects in the formation of metal-EDTA complexes. J. Sol. Chem. 26:1997;877-888.
    • (1997) J. Sol. Chem. , vol.26 , pp. 877-888
    • Kankia, B.I.1    Funck, T.2    Uedaira, H.3    Buckin, V.A.4
  • 37
    • 0015700007 scopus 로고
    • Ultrasonic measurements with milliliter liquid samples in the 0.5-100 MHz range
    • Eggers F., Funck T. Ultrasonic measurements with milliliter liquid samples in the 0.5-100 MHz range. Rev. Sci. Instrum. 44:1973;969-977.
    • (1973) Rev. Sci. Instrum. , vol.44 , pp. 969-977
    • Eggers, F.1    Funck, T.2
  • 38
    • 0038914607 scopus 로고    scopus 로고
    • Broad-band ultrasonic measurement techniques for liquids
    • Eggers F., Kaatze U. Broad-band ultrasonic measurement techniques for liquids. Meas. Sci. Technol. 7:1996;1-19.
    • (1996) Meas. Sci. Technol. , vol.7 , pp. 1-19
    • Eggers, F.1    Kaatze, U.2
  • 39
    • 0020156572 scopus 로고
    • Development of methods of precise ultrasonic measurements in small volumes of liquids
    • Sarvazyan A.P. Development of methods of precise ultrasonic measurements in small volumes of liquids. Ultrasonics. 20:1982;151-154.
    • (1982) Ultrasonics , vol.20 , pp. 151-154
    • Sarvazyan, A.P.1
  • 40
    • 84969001783 scopus 로고
    • The attractions of proteins for small molecules and ions
    • Scatchard G. The attractions of proteins for small molecules and ions. Ann. N. Y. Acad. Sci. 51:1949;660-672.
    • (1949) Ann. N. Y. Acad. Sci. , vol.51 , pp. 660-672
    • Scatchard, G.1
  • 41
    • 0001384941 scopus 로고
    • The velocity of sound in electrolytic solutions
    • Barnatt S. The velocity of sound in electrolytic solutions. J. Chem. Phys. 20:1952;278-279.
    • (1952) J. Chem. Phys. , vol.20 , pp. 278-279
    • Barnatt, S.1
  • 42
    • 0001054914 scopus 로고
    • Standard partial molal compressibilities by ultrasonics. I. Sodium chloride and potassium chloride at 25°C
    • Owen B.B., Simons H.L. Standard partial molal compressibilities by ultrasonics. I. Sodium chloride and potassium chloride at 25°C. J. Phys. Chem. 61:1957;479-482.
    • (1957) J. Phys. Chem. , vol.61 , pp. 479-482
    • Owen, B.B.1    Simons, H.L.2
  • 43
    • 0001144048 scopus 로고
    • Measurement of the amount of bound water by ultrasonic interferometer
    • Shio H., Ogawa T., Yoshihashi H. Measurement of the amount of bound water by ultrasonic interferometer. J. Am. Chem. Soc. 77:1955;4980-4982.
    • (1955) J. Am. Chem. Soc. , vol.77 , pp. 4980-4982
    • Shio, H.1    Ogawa, T.2    Yoshihashi, H.3
  • 45
    • 0015541536 scopus 로고
    • Different conformations of double-stranded nucleic acid in solution as revealed by circular dichroism
    • Ivanov V.I., Minchenkova L.E., Schyolkina A.K., Poletayev A.I. Different conformations of double-stranded nucleic acid in solution as revealed by circular dichroism. Biopolymers. 12:1973;89-110.
    • (1973) Biopolymers , vol.12 , pp. 89-110
    • Ivanov, V.I.1    Minchenkova, L.E.2    Schyolkina, A.K.3    Poletayev, A.I.4
  • 46
    • 0017803456 scopus 로고
    • Specific cation effects on conformational transitions of DNA in aqueous solutions
    • Hanlon S., Chan A., Berman S. Specific cation effects on conformational transitions of DNA in aqueous solutions. Biochim. Biophys. Acta. 519:1978;526-536.
    • (1978) Biochim. Biophys. Acta , vol.519 , pp. 526-536
    • Hanlon, S.1    Chan, A.2    Berman, S.3
  • 47
    • 0028222102 scopus 로고
    • Influence of base composition, base sequence, and duplex structure on DNA hydration: Apparent molar volumes and apparent molar adiabatic compressibilities of synthetic and natural DNA duplexes at 25°C
    • Chalikian T.V., Sarvazyan A.P., Plum G.E., Breslauer K.J. Influence of base composition, base sequence, and duplex structure on DNA hydration: apparent molar volumes and apparent molar adiabatic compressibilities of synthetic and natural DNA duplexes at 25°C. Biochemistry. 33:1994;2394-2401.
    • (1994) Biochemistry , vol.33 , pp. 2394-2401
    • Chalikian, T.V.1    Sarvazyan, A.P.2    Plum, G.E.3    Breslauer, K.J.4
  • 49
    • 0014403595 scopus 로고
    • Interaction of polyelectrolytes with simple electrolytes. III. The binding of magnesium ion by deoxyribonycleic acid
    • Skerjanc J., Strauss U.P. Interaction of polyelectrolytes with simple electrolytes. III. The binding of magnesium ion by deoxyribonycleic acid. J. Am. Chem. Soc. 90:1968;3081-3085.
    • (1968) J. Am. Chem. Soc. , vol.90 , pp. 3081-3085
    • Skerjanc, J.1    Strauss, U.P.2
  • 50
    • 0003398777 scopus 로고
    • In: Water in Disperse Systems
    • (eds). B.V. Deryagin, N.V. Churaev and F.D. Ovcharenko, (Kmimiya, Moscow
    • V.A. Buckin, A.P. Sarvazyan and D.P. Kharakoz, in: Water in Disperse Systems, (eds). B.V. Deryagin, N.V. Churaev and F.D. Ovcharenko, Water around biological molecules (Kmimiya, Moscow, 1989) pp. 45-63.
    • (1989) Water Around Biological Molecules , pp. 45-63
    • Buckin, V.A.1    Sarvazyan, A.P.2    Kharakoz, D.P.3
  • 51
    • 0003424871 scopus 로고
    • Experimental studies of DNA-water interaction
    • Buckin V.A. Experimental studies of DNA-water interaction. Mol. Biol. 21:1987;512-525.
    • (1987) Mol. Biol. , vol.21 , pp. 512-525
    • Buckin, V.A.1
  • 52
    • 37049117469 scopus 로고
    • Effect of pressure on ionization equilibria in water at 25°C
    • Lown D.A., Thirsk H.R., Wynne-Jones L. Effect of pressure on ionization equilibria in water at 25°C. Trans. Faraday Soc. 64:1968;2073-2080.
    • (1968) Trans. Faraday Soc. , vol.64 , pp. 2073-2080
    • Lown, D.A.1    Thirsk, H.R.2    Wynne-Jones, L.3
  • 53
    • 33847804701 scopus 로고
    • Isothermal compressibility of aqueous sodium chloride, magnesium chloride, sodium sulfate, and magnesium sulfate solutions from 0 to 45°C at 1 atm
    • Millero F.J., Ward G.K., Lepple F.K., Hoff E.V. Isothermal compressibility of aqueous sodium chloride, magnesium chloride, sodium sulfate, and magnesium sulfate solutions from 0 to 45°C at 1 atm. J. Phys. Chem. 78:1974;1636-1643.
    • (1974) J. Phys. Chem. , vol.78 , pp. 1636-1643
    • Millero, F.J.1    Ward, G.K.2    Lepple, F.K.3    Hoff, E.V.4
  • 54
    • 0000049113 scopus 로고
    • Apparent molal volumes and adiabatic compressibilities of aqueous transition metal chlorides at 25°C
    • Lo Surdo A., Millero F.J. Apparent molal volumes and adiabatic compressibilities of aqueous transition metal chlorides at 25°C. J. Phys. Chem. 84:1980;710-715.
    • (1980) J. Phys. Chem. , vol.84 , pp. 710-715
    • Lo Surdo, A.1    Millero, F.J.2
  • 55
    • 0002696861 scopus 로고
    • Hydration of nucleic bases on dilute aqueous solutions. Apparent molar adiabatic and isothermal compressibilities, apparent molar volumes and their temperature slopes at 25°C
    • Buckin V.A. Hydration of nucleic bases on dilute aqueous solutions. Apparent molar adiabatic and isothermal compressibilities, apparent molar volumes and their temperature slopes at 25°C. Biophys. Chem. 29:1988;283-292.
    • (1988) Biophys. Chem. , vol.29 , pp. 283-292
    • Buckin, V.A.1
  • 57
    • 0028133296 scopus 로고
    • A simple empirical model describing the thermodynamics of hydration of ions of widely varying charges, sizes, and shapes
    • Marcus Y. A simple empirical model describing the thermodynamics of hydration of ions of widely varying charges, sizes, and shapes. Biophys. Chem. 51:1994;111-127.
    • (1994) Biophys. Chem. , vol.51 , pp. 111-127
    • Marcus, Y.1
  • 59
    • 0345363149 scopus 로고    scopus 로고
    • Atomic-resolution crystal structures of B-DNA reveal specific influences of divalent metal ions on conformation and packing
    • Minasov G., Tereshko V., Egli M. Atomic-resolution crystal structures of B-DNA reveal specific influences of divalent metal ions on conformation and packing. J. Mol. Biol. 291:1999;83-99.
    • (1999) J. Mol. Biol. , vol.291 , pp. 83-99
    • Minasov, G.1    Tereshko, V.2    Egli, M.3
  • 60
    • 0026033706 scopus 로고
    • Interaction of guanilic acid with the Mg(II), Ca(II), Sr(II), and Ba(II) ions in the crystalline solid and aqueous solution: Evidence for the ribose C2′-endo/anti and C3′-endo/anti conformational changes
    • Tajmir-Riahi H.A. Interaction of guanilic acid with the Mg(II), Ca(II), Sr(II), and Ba(II) ions in the crystalline solid and aqueous solution: evidence for the ribose C2′-endo/anti and C3′-endo/anti conformational changes. Biopolymers. 31:1991;101-108.
    • (1991) Biopolymers , vol.31 , pp. 101-108
    • Tajmir-Riahi, H.A.1
  • 61
    • 0345055328 scopus 로고    scopus 로고
    • DNA bending by small, mobile multivalent cations
    • Rouzina I., Bloomfield V.A. DNA bending by small, mobile multivalent cations. Biophys. J. 74:1998;3152-3164.
    • (1998) Biophys. J. , vol.74 , pp. 3152-3164
    • Rouzina, I.1    Bloomfield, V.A.2


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